
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events_Nozzle/broadinstitute.org/cancer.genome.analysis/10466/18/GDAC_Correlate_Genomic_Events_NozzleReport.R")
> result <- create.report.html("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events_Nozzle/broadinstitute.org/cancer.genome.analysis/10466/18/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iF=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events/CESC-TP/11589707/analysis.results.RData", "-nV=Nozzle.R1", "-gE=CLI_CLUS")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
                                              V1.D 
                                   "Time to Death" 
                                                V2 
                                             "AGE" 
                                                V3 
                               "PATHOLOGY.T.STAGE" 
                                                V4 
                               "PATHOLOGY.N.STAGE" 
                                                V5 
                               "PATHOLOGY.M.STAGE" 
                                                V6 
                               "HISTOLOGICAL.TYPE" 
                                                V7 
          "RADIATIONS.RADIATION.REGIMENINDICATION" 
                                                V8 
                           "NUMBERPACKYEARSSMOKED" 
                                                V9 
                           "NUMBER.OF.LYMPH.NODES" 
                                               V10 
                                            "RACE" 
                                               V11 
                                       "ETHNICITY" 
                                               V12 
                          "WEIGHT_KG_AT_DIAGNOSIS" 
                                               V13 
                                    "TUMOR_STATUS" 
                                               V14 
                "TUMOR_SAMPLE_PROCUREMENT_COUNTRY" 
                                               V15 
                         "NEOPLASMHISTOLOGICGRADE" 
                                               V16 
                    "TOBACCO_SMOKING_YEAR_STOPPED" 
                                               V17 
               "TOBACCO_SMOKING_PACK_YEARS_SMOKED" 
                                               V18 
                         "TOBACCO_SMOKING_HISTORY" 
                                               V19 
                  "PATIENT.AGEBEGANSMOKINGINYEARS" 
                                               V20 
                            "RADIATION_TOTAL_DOSE" 
                                               V21 
                          "RADIATION_THERAPY_TYPE" 
                                               V22 
                        "RADIATION_THERAPY_STATUS" 
                                               V23 
                          "RADIATION_THERAPY_SITE" 
                                               V24 
                        "RADIATION_ADJUVANT_UNITS" 
                                               V25 
                         "PREGNANCIES_COUNT_TOTAL" 
                                               V26 
                    "PREGNANCIES_COUNT_STILLBIRTH" 
                                               V27 
"PATIENT.PATIENTPREGNANCYSPONTANEOUSABORTIONCOUNT" 
                                               V28 
                    "PREGNANCIES_COUNT_LIVE_BIRTH" 
                                               V29 
"PATIENT.PATIENTPREGNANCYTHERAPEUTICABORTIONCOUNT" 
                                               V30 
                       "PREGNANCIES_COUNT_ECTOPIC" 
                                               V31 
                         "POS_LYMPH_NODE_LOCATION" 
                                               V32 
                                "MENOPAUSE_STATUS" 
                                               V33 
                      "LYMPHOVASCULAR_INVOLVEMENT" 
                                               V34 
                   "LYMPH_NODES_EXAMINED_HE_COUNT" 
                                               V35 
                            "LYMPH_NODES_EXAMINED" 
                                               V36 
                    "KERATINIZATION_SQUAMOUS_CELL" 
                                               V37 
                      "INITIAL_PATHOLOGIC_DX_YEAR" 
                                               V38 
             "HISTORY_HORMONAL_CONTRACEPTIVES_USE" 
                                               V39 
                          "HEIGHT_CM_AT_DIAGNOSIS" 
                                               V40 
                              "CORPUS_INVOLVEMENT" 
                                               V41 
                           "CHEMO_CONCURRENT_TYPE" 
                                               V42 
                              "CERVIX_SUV_RESULTS" 
                                               V43 
                        "AJCC_TUMOR_PATHOLOGIC_PT" 
                                               V44 
                                "AGE_AT_DIAGNOSIS" 
                                               V45 
                      "STAGE_EVENT.CLINICAL_STAGE" 
> q(save="no")
